Locus 43

Sequence ID 3R_DroMel_CAF1
Location 302,415 – 302,525
Length 110
Max. P 0.965414
window68 window69

overview

Window 8

Location 302,415 – 302,525
Length 110
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 84.48
Mean single sequence MFE -30.90
Consensus MFE -20.01
Energy contribution -20.57
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -3.83
Structure conservation index 0.65
SVM decision value 1.58
SVM RNA-class probability 0.965414
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 302415 110 + 27905053
UUAUAUUGGCGUAUUAUGAUCAUUAU----AUAUUUCAAGAUAUAGGUUAUAUCGACCGCUAUAUCAAAUCUUUUGUUACUUAAGGGCUCUGGAGCCUAAGUAUGCCAAAA----GCA
.....((((((((((...........----.........((((((((((.....))))..))))))..................(((((....))))).))))))))))..----... ( -26.60)
>DroSec_CAF1 37638 112 + 1
UCAUAUGGGCGUAUUAUGAUCACGAUAUACAUAUUUCAAGAUAU--GUUGUAUCGACCCCUUUAUCAAAUCUAUUGUUACUCCAGUGUUCUGGAGCAUAAGUAUGCCAAAA----ACA
.......(((((((((((....(((((((((((((....)))))--).)))))))........................((((((....))))))))).))))))))....----... ( -32.20)
>DroSim_CAF1 39354 116 + 1
UUAUAUGGGCGUAUUAUGAUCACGAUAUACAUAUUUCAAGAUAU--GUUAUAUCGACCGCUUUAUCAAAUAUAUUGGUACUCCAGUGUUCUGGAGCAUAAGUAUGCCAAAAAAAAAAA
.......(((((((((((....(((((((((((((....)))))--).))))))).......((((((.....))))))((((((....))))))))).))))))))........... ( -33.90)
>consensus
UUAUAUGGGCGUAUUAUGAUCACGAUAUACAUAUUUCAAGAUAU__GUUAUAUCGACCGCUUUAUCAAAUCUAUUGUUACUCCAGUGUUCUGGAGCAUAAGUAUGCCAAAA____ACA
.......((((((((.((((.(((((....(((((....)))))..)))))))))........................((((((....))))))....))))))))........... (-20.01 = -20.57 +   0.56)

alignment

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secondary structure

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dotplot

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Window 9

Location 302,415 – 302,525
Length 110
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 84.48
Mean single sequence MFE -25.80
Consensus MFE -16.02
Energy contribution -17.13
Covariance contribution 1.11
Combinations/Pair 1.05
Mean z-score -2.40
Structure conservation index 0.62
SVM decision value 0.17
SVM RNA-class probability 0.618704
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 302415 110 - 27905053
UGC----UUUUGGCAUACUUAGGCUCCAGAGCCCUUAAGUAACAAAAGAUUUGAUAUAGCGGUCGAUAUAACCUAUAUCUUGAAAUAU----AUAAUGAUCAUAAUACGCCAAUAUAA
...----..(((((.((((((((((....))))..))))))......((((..(((((......((((((...))))))......)))----))...)))).......)))))..... ( -25.20)
>DroSec_CAF1 37638 112 - 1
UGU----UUUUGGCAUACUUAUGCUCCAGAACACUGGAGUAACAAUAGAUUUGAUAAAGGGGUCGAUACAAC--AUAUCUUGAAAUAUGUAUAUCGUGAUCAUAAUACGCCCAUAUGA
...----....(((...(((.((((((((....)))))))).(((.....)))...)))((..(((((..((--((((......)))))).)))))...)).......)))....... ( -25.50)
>DroSim_CAF1 39354 116 - 1
UUUUUUUUUUUGGCAUACUUAUGCUCCAGAACACUGGAGUACCAAUAUAUUUGAUAAAGCGGUCGAUAUAAC--AUAUCUUGAAAUAUGUAUAUCGUGAUCAUAAUACGCCCAUAUAA
...........(((.......((((((((....))))))))...................((((((((((.(--((((......)))))))))))..)))).......)))....... ( -26.70)
>consensus
UGU____UUUUGGCAUACUUAUGCUCCAGAACACUGGAGUAACAAUAGAUUUGAUAAAGCGGUCGAUAUAAC__AUAUCUUGAAAUAUGUAUAUCGUGAUCAUAAUACGCCCAUAUAA
...........(((........(((((((....)))))))....................(((((((((.....))))).......(((.....))))))).......)))....... (-16.02 = -17.13 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:10 2006